• Journal of Life Science
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• v.24 no.7
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• pp.707-712
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• 2014

We evaluated the phenetic relationships within six taxa of genus Oxalis L. in Korea with random amplified polymorphic DNA (RAPD) markers. Ten primers produced 125 bands for six taxa, and the mean number of bands per primer was 12.5. Across the six taxa, 121 (96.8%) bands were polymorphic, and only four were monomorphic. The mean number of RAPD phenotypes across the six taxa varied from 3.6 (O. stricta and O. corymbosa) to 4.8 (O. corniculata for. rubrifolia). In a simple measure of intraspecies variability according to the percentage of polymorphic bands, O. stricta and O. corymbosa exhibited the lowest variation (28.8%), and O. corniculata for. rubrifolia showed the highest (38.4%). A mean of 32.7% of the loci was polymorphic within taxa. The total interspecies genetic diversity ($H_T$) and intraspecies genetic diversity ($H_S$) was 0.362 and 0.122, respectively. On a per-locus basis, the proportion of total genetic variation due to differences among species ($G_{ST}$) was 0.663. This indicates that about 66.3% of the total variation was among species. The node of O. stricta and O. corniculata for. rubrifolia was strongly supported, with a high bootstrap value in the NJ tree and sistered with O. corniculata. According to RAPD analysis, the number of chromosomes was not congruent with a phenetic relationship.

• Journal of Microbiology
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• v.33 no.3
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• pp.171-177
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• 1995

Random amplified polymorphic DAN markers were characterized for three taxonomically problematic Penicillium species : P. aurantiogriseum var. Aurantiogriseum, P. verrucosum and P. puberulum, as well as for 25 species of mono, bi-, and terverticillate Penicillia. The relationships among mono, bi-, and terverticillate Penicillium species were determined from these RAPD markers. Eight species from mono-, eight from bi-, and nine from terverticilate Penicillia were examined. With 14 randomly chosen 10-mer primes, a 310 character by 25 species matrix was generated. Phenetic analysis separated the 25 species into three genetically distinct groups that correspond to the different arrangements of penicilli (mono-, bi-, and terverticillate). The results of this study suggest that P. aurantiogriseum var. aurantiogriseum, P. VERRUCOSUM, AND P. puberulum represent genetically distinct species, and that P. vulpinum should be included in terverticilate Penicillia. Phenogram branching patterns indicated that biverticillate species are genetically more similar to monoverticilate species than they are to terverticillate species.

• Korean Journal of Plant Taxonomy
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• v.43 no.4
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• pp.300-311
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• 2013

Subalpine species, Sorbus pohuashanensis in the Korean peninsula, which is assumed to be evolved from hybridization between S. commixta and an unknown species based on the flavonoids data. Morphometric analysis was conducted on the basis of 19 leaf and flower (or fruit) characters. A total of 721 samples in 13 populations of Sorbus pohuashanensis and S. commixta from Korea and additional specimens of S. commixta, S. pohuashanensis, and S. wilsoniana from Japan and China were examined to reveal the hybridization patterns and morphological differences. We found a preliminary evidence where Korean mountain rowan is more related to a Chinese inland taxon, S. wilsoniana, rather than Northeastern Chinese S. pohuashanensis in terms of flavonoids. The current morphological structure of the Korean mountaion rowan, however, which is more similar to S. commixta, was neither associated with that of S. wilsoniana nor that of S. pohuashanensis. This indicates that this morphological variation represents an intermediate of S. commixta and S. wilsoniana via a more ancient hybridization event in terms of qualitative characters, such as stipules, buds, and carpels. These morphometric differences together with other distinguishing characteristics suggest that the Korean mountain rowan should be considered as a conspecific species of S. commixta, although this demonstration of hybridization with the current phenetic species concept contradicts longstanding historical species concept.

• KOREAN JOURNAL OF CROP SCIENCE
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• v.55 no.4
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• pp.319-326
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• 2010

Safflower (Carthamus tinctorius L.) is a herb primarily distributed throughout in the world. We have used the inter-simple sequence repeats (ISSR) technique to investigate the phylogenetic relationships and genetic diversity of C. tinctorius. Of all germplasms, 88.7% were polymorphic among all germplasms. Mean genetic diversity within germplasms was very low (0.048). The Turkey germplasm had the highest expected diversity (0.082) and Australia germplasm was the lowest (0.020). These values indicate that most of the genetic diversity of safflower is found among germplasms and there is a high among-germplasm differentiation. We found eight phenetic bands for determining the specific marker of germplasm with SCAR markers. The regions of the Mediterranean Sea and India may be the most probable candidates for the origin of safflower. The tree showed four major clades: (1) European germplasms, (2) Azerbaijan, Egypt, and Ethiopia, (3) Australia, and (4) America.

• The Korean Journal of Zoology
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• v.24 no.2
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• pp.91-98
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• 1981

It has been confirmed that two dendrograms resulted from two similarity matrices, average taxonomic distance and correlation coefficient matrices, are different with each other when cluster analyses were performed with 571 adults of deer mice, Peromyscus maniculatus using 30 morphometric characters. To choose one of two similarity matrices mentioned above in order to construct a dendrogram representing phenetic relationships among taxa, an objective method using the result from principal component analysis as a standard result to compare with two matrices has been suggested.

• Journal of Life Science
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• v.24 no.6
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• pp.612-617
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• 2014

The phenetic relationships among six natural populations of Equisetum pratense in Korea were investigated at the population level by constructing a tree based on Random Amplified Polymorphic DNA (RAPD) markers. RAPD analysis was also conducted to estimate genetic diversity and the population structure of E. pratense. A mean of 26.7% at the six population levels indicated polymorphism. E. pratense was found to have fewer alleles per locus (1.267) and fewer effective alleles per locus (1.176). Genetic diversity (0.102) in E. pratense is lower than the average for species with similar life history traits. Total genetic diversity values (HT) varied between 0.112 (OPD-07) and 0.445 (OPD-16), for an average overall polymorphic locus of 0.141. Inter-locus variation in the within-population genetic diversity ($H_S$) was low (0.102). Asexual reproduction, small population size, and the colonization process are proposed as possible factors contributing to the observed low genetic diversity in E. pratense. On a per-locus basis, the proportion of total genetic variation due to differences among populations ($G_{ST}$) ranged from 0.129 for OPD-07 to 0.455 for OPD-09, with a mean of 0.277. This indicated that about 27.7% of the total variation was among populations. Thus, genetic variation (72.3%) resided within populations. This study contributes new information for research on the taxonomy and population genetics of E. pratense.

• Journal of Korean Society of Forest Science
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• v.87 no.2
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• pp.153-163
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• 1998

Genetic relationships of some poplars in the section Leuce, including 5 species and 11 clones of Populus alba${\times}$glandulosa, were investigated on the basis of RAPD marker analysis. Twenty-two of the 88 arbitrary 10-mer primers, showed reproducible amplification in the preliminary experiment with 6 samples, were used for PCR and generated a total of 181 RAPD markers. Genetic relationships among the analyzed samples were tested by two phenetic methods of the UPGMA and the neighbor-joining, which revealed the close genetic relationship between P. glandulosa and P. alba. And the close genetic relationship between P. glandulosa and P. davidiana was ascertained by the principal component analysis. Based on the observation of the close genetic relationship between them, it was deduced that P. glandulosa might be originated by the saltational speciation caused by the hybridization between P. alba and P. davidiana in nature.

• Journal of Microbiology
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• v.38 no.3
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• pp.137-144
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• 2000

The genetic relationship of six Lactobacillus strains and five laboratory isolated form fermented milk were determined by a random amplified polymorphic DNA(RAPD)-Polymease chan reaction (PCR) method. With 42 random primers. the result were analyzed by using the NTSYS-PC software for phenetic analysis. it revealed that all tested bacteria were divided into three distinct clusters. The clusters implied three subgenuses existed for the genus Lactobacillus, which were previously proposed by Rogosa and Sharpe. From the results, it was also possible to determine that the isolated Lactobacillus strains from fermented milk were grouped into L. acidophilus or L. bulgaricus. Interestingly. the three tested L. casei strains were divided into different clusters implying different subgenuses, i.e., Thermobacterium (L. casei YIT 9018) and Streptobacterium(L. casei CHR. Hansen and L.casei ATCC 4646). According to the distance matrix generated by an UPGMA program, the isolated bacteria LT01 and LT02 were determined as a subspecies of L. bulgaricus. The HK01, HK02 and HK03 were very closely related to either L. acidophilus or L. case YIT 9018. Hence, RAPD-PCR appears to be a very practical method to determine the genetic relationships of the Lactobacillus species and to characterize the unknown Lactobacillus strains at the subspecies level.

• Journal of Life Science
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• v.16 no.5
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• pp.740-745
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• 2006

Inter simple sequence repeat (ISSR) markers were performed in order to analyse the phylogenetic relationships of four taxa of Castor-aralia (Kalopanax pictus): K. pictus, K. pictus var. magnificus, K. pictus var. maximowiczii, and thornless K. pictus. The 11 primers were produced 64 reproducible ISSR bands. Analysis of ISSR from individual plants of Korean K. pictus resulted in 41 polymorphic bands with 64.1%. When species were grouped by four taxa, within group diversity was 0.115 $(H_S)$, while among group diversity was 0.467 $(G_{ST})$ on a per locus basis. The estimated gene flow (Nm) for K. pictus var. maximowiczii and K. pictus var. magnificus were very higher than K. pictus. It is suggested that the isolation of geographical distance and reproductive isolation among K. pictus populations may have played roles in shaping the population structure of this species. In phenetic tree, ISSR markers are very effective in classifying natural populations as well as taxon levels of genus Kalopanax in Korea.

• Horticultural Science & Technology
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• v.35 no.1
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• pp.108-120
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• 2017

Modern watermelon cultivars (Citrullus lanatus [Thunb.] Matsum.& Nakai var. lanatus) have fruits with diverse phenotypes, including fruit shape, rind patterns, and flesh color. Molecular markers enable efficient selection of plants harboring desirable phenotypes. In the present study, publicly available DNA markers tightly linked to fruit shape, rind stripe pattern, and flesh color were evaluated using 85 watermelon accessions with diverse fruit phenotypes. For fruit shape, the dCAPS SUN - Cla011257 marker revealed an 81% of marker - trait match for accessions with elongated or round fruits. For rind stripe pattern, the SCAR wsb6-11marker was effective for selecting Jubilee-type rind pattern from other rind patterns. For flesh color, the Clcyb.600 and Lcyb markers derived from a mutation in the Lycopene ${\beta}$ - cyclase (Lcyb) gene, were effective at selecting red or yellow flesh. Forty-eight accessions possessing diverse fruit - related traits were selected as a reference array and their genetic relationships assessed using 16 SSR markers. At a coefficient of 0.11, the 48 accessions grouped into two major clades: Clade I and Clade II. Clade I subdivided further into subclades I - 1 and I - 2 at a coefficient of 0.39. All accessions with colored flesh were classified into Clade I, whereas those with white - flesh were classified into Clade II. Differences in fruit traits between subclades I - 1 and I - 2 were observed for rind pattern and fruit color; a majority of the accessions with Crimson-type striped or non-striped rind were grouped together in subclade I - 1, while most accessions in subclade I - 2 had a Jubilee - type rind stripe pattern. These results imply that reference array watermelon accessions possess distinguishable genetic structure based on rind stripe pattern. However, no significant grouping pattern was observed based on other fruit-related traits.